Dear Andrea,
as others have suggested there are many ways to dehydrate crystals
by increasing the concentration of salt/precipitant or adding
glycerol/EG/PEG 200-400 to the solutions surrounding your crystals. I
have always found controlled dehydration using a specific device to be
much
Hello,
I wish to learn about self-rotation Patterson maps such as how to
interpret a map and find out non-crystallographic symmetry. Could you
suggest some good papers (for dummies), web-sites etc.
Thanks a lot for your help.
John
Dear Jacob,
Globalphasing has a new programm called Pipedream that should do just
what you want. I am not sure if it is available to non consortium
members.
Best regards,
Alexander
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
Jacob Keller
On Sun, Aug 28, 2011 at 7:23 PM, Jacob Keller
j-kell...@fsm.northwestern.edu wrote:
are there any additional problems or known issues running ccp4 or
other xtal software on windows 7 (beyond those of Vista, etc.?)
Phenix, ARP/wARP, and HKL2000 do not run on Windows. I'm pretty sure none
of
Hi Amir,
When this error was reported before, it turned out that the sequence file used
to define the composition had the one-letter code Z (presumably for Se-Met),
which Phaser-2.1.4 doesn't recognise. I'm not sure what the newer versions in
CCP4 and Phenix would do with this, but at the
On Mon, Aug 29, 2011 at 7:53 AM, Nat Echols nathaniel.ech...@gmail.comwrote:
On Sun, Aug 28, 2011 at 7:23 PM, Jacob Keller
j-kell...@fsm.northwestern.edu wrote:
are there any additional problems or known issues running ccp4 or
other xtal software on windows 7 (beyond those of Vista, etc.?)
Hi John,
There's some by now fairly ancient tutorial material on the SRF (though of
course the theory hasn't changed) here:
http://www.ccp4.ac.uk/dist/ccp4i/help/modules/appendices/mr-bathtutorial/mrbath2.html#section2.8
(and the following section 2.9) and here:
The CCP4 suite runs very well in a virtual machine (e.g. VirtualBox) in
Windows. You can share folders between VBox and Windows so you can run
graphically intensive apps like Coot and Pymol natively under Windows but
still use data from your Linux VM.
Roger Rowlett
On Aug 28, 2011 10:24 PM, Jacob
Hello,
I am looking at insertions/deletions occurring at various places in my
protein and also I want to map the active site residues. I have performed
Multiple sequence alignment as well as multiple structure based alignment
for my protein of study. I have obtained different alignment patterns
Nian,
Before you dump the column, clean it and run some protein standards on
it. If everything looks OK, run a small sample of your protein
again. If it behaves the same way, then you may have a protein with
hydrophobic patches. Anomalous binding to and elution from polymeric
SEC
The current SHELX binaries (including the beta-test multi-CPU SHELXD) all
appear to run fine under Windows 7. There is no need to use a virtual box etc.
George
On Sun, Aug 28, 2011 at 11:53:05PM -0700, Nat Echols wrote:
On Sun, Aug 28, 2011 at 7:23 PM, Jacob Keller j-kell...@fsm.northwestern.edu
It is simply a result of the 'zero dependency' philosophy. In other words, the
exact opposite of current trends in crystallographic computing (e.g.
Phenix/CCTBX).
George
On Mon, Aug 29, 2011 at 12:39:16PM -0500, Jacob Keller wrote:
You know, why does your software always seem so clean? Was it
On 11:15 Tue 23 Aug , Engin Özkan wrote:
I distinctly remember reading a paper where B factors were predicted
based on the location of the atoms (core vs exposed, main chain vs
side chain) and the predicted values were not that far off.
Here's one along those lines:
Flexibility and
Okay then,
Here's the plan for all the software developers out there:
1) backport cctbx to fortran (preferably F77) and include all subroutines
inline to avoid the use of any external libraries whatsoever
2) ditch all gui support or, from scratch, develop a gui front-end that uses
none of the
the question, then, is how fast is your FFT on a slide rule?
Dexter Kennedy, MD
Thumbed from my iPhone
On Aug 29, 2011, at 4:01 PM, Paul Smith p...@paladinscientific.com wrote:
Okay then,
Here's the plan for all the software developers out there:
1) backport cctbx to fortran (preferably
Pipelined data to map calculations can be run with the 'bng' script in
MIExpert, a companion package to the MIFit software. These are open source
packages at
http://code.google.com/p/mifit
The bng script can either be run on the command-line or through the MIFit GUI.
Both GUI and processing
Hello John,
In my struggle with self-rotation function, I found this extremely useful to
start with. Specially the fig 4 on page 107.
Characterizing a Crystal From an Initial Native Dataset by Michael R. Sawaya
http://www.springerlink.com/content/k024q83484477j42/
The peaks in the log
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